90 results on '"Shreya Banerjee"'
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2. Suppression of classical nuclear import pathway by importazole and ivermectin inhibits rotavirus replication
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Rakesh Sarkar, Shreya Banerjee, Prolay Halder, Hemanta Koley, Satoshi Komoto, and Mamta Chawla-Sarkar
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Rotavirus ,Pharmacology ,Microbiology (medical) ,Mice ,Viral Proteins ,Ivermectin ,Infectious Diseases ,Active Transport, Cell Nucleus ,Animals ,Pharmacology (medical) ,Karyopherins ,Virus Replication ,Rotavirus Infections - Abstract
Background Rotavirus is the foremost cause of acute gastroenteritis among infants in resource-poor countries, causing severe morbidity and mortality. The currently available rotavirus vaccines are effective in reducing severity of the disease but not the infection rates, thus antivirals as an adjunct therapy are needed to reduce the morbidity in children. Viruses rely on host cellular machinery for nearly every step of the replication cycle. Therefore, targeting host factors that are indispensable for virus replication could be a promising strategy. Objectives To assess the therapeutic potential of ivermectin and importazole against rotaviruses. Methods Antirotaviral activity of importazole and ivermectin was measured against various rotavirus strains (RV-SA11, RV-Wa, RV-A5-13, RV-EW) in vitro and in vivo by quantifying viral protein expression by western blot, analysing viroplasm formation by confocal microscopy, and measuring virus yield by plaque assay. Results Importin-β1 and Ran were found to be induced during rotavirus infection. Knocking down importin-β1 severely impaired rotavirus replication, suggesting a critical role for importin-β1 in the rotavirus life cycle. In vitro studies revealed that treatment of ivermectin and importazole resulted in reduced synthesis of viral proteins, diminished production of infectious virus particles, and decrease in viroplasm-positive cells. Mechanistic study proved that both drugs perform antirotavirus activity by inhibiting the function of importin-β1. In vivo investigations in mice also confirmed the antirotavirus potential of importazole and ivermectin at non-toxic doses. Treatments of rotavirus-infected mice with either drug resulted in diminished shedding of viral particles in the stool sample, reduced expression of viral protein in the small intestine and restoration of damaged intestinal villi comapared to untreated infected mice. Conclusions The study highlights the potential of importazole and ivermectin as antirotavirus therapeutics. more...
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- 2022
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3. Sentiment Analysis of Weather-Related Tweets from Cities within Hot Climates
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Yuliya Dzyuban, Graces N. Y. Ching, Sin Kang Yik, Adrian J. Tan, Peter J. Crank, Shreya Banerjee, Rachel Xin Yi Pek, and Winston T. L. Chow
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Atmospheric Science ,Global and Planetary Change ,Social Sciences (miscellaneous) - Abstract
Evidence exists that exposure to weather hazards, particularly in cities subject to heat island and climate change impacts, strongly affects individuals’ physical and mental health. Personal exposure to and sentiments about warm conditions can currently be expressed on social media, and recent research noted that the geotagged, time-stamped, and accessible social media databases can potentially be indicative of the public mood and health for a region. This study attempts to understand the relationships between weather and social media sentiments via Twitter and weather data from 2012 to 2019 for two cities in hot climates: Singapore and Phoenix, Arizona. We first detected weather-related tweets, and subsequently extracted keywords describing weather sensations. Furthermore, we analyzed frequencies of most used words describing weather sensations and created graphs of commonly occurring bigrams to understand connections between them. We further explored the annual trends between keywords describing heat and heat-related thermal discomfort and temperature profiles for two cities. Results showed significant relationships between frequency of heat-related tweets and temperature. For Twitter users exposed to no strong temperature seasonality, we noticed an overall negative cluster around hot sensations. Seasonal variability was more apparent in Phoenix, with more positive weather-related sentiments during the cooler months. This demonstrates the viability of Twitter data as a rapid indicator for periods of higher heat experienced by public and greater negative sentiment toward the weather, and its potential for effective tracking of real-time urban heat stress. Significance Statement Social media such as Twitter allow individuals to broadcast their opinions in real time, including perceptions and sensations related to weather events. Evidence from two cities exposed to hot weather—one equatorial and one desert subtropical—indicates that tweets were sensitive to seasonal temperature differences even within a small range. For Twitter users exposed to no strong temperature seasonality, generally negative sentiments to hot weather were seen year-round. In Phoenix with more pronounced seasonality, tweets were more positive in sentiment during the cooler months. This result shows promise for the medium as a rapid real-time indicator—or a snapshot—for societal sentiment to weather events. more...
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- 2022
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4. Direct Evidence for Synchronicity between Rotation along C α −C′ and Pyramidalization of C′ in Amides
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Shreya Banerjee, Sunil K. Gupta, and Erode N. Prabhakaran
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General Chemistry - Published
- 2023
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5. α‐Helices propagating from stable nucleators exhibit unconventional thermal folding
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Shreya Banerjee, Sunit Pal, and Erode N. Prabhakaran
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Protein Conformation, alpha-Helical ,Protein Folding ,Quantitative Biology::Biomolecules ,Hot Temperature ,Materials science ,Protein Stability ,Static Electricity ,Biophysics ,Hydrogen Bonding ,Cooperativity ,Cell Biology ,Molecular Dynamics Simulation ,Biochemistry ,Folding (chemistry) ,Protein structure ,α helices ,Structural Biology ,Chemical physics ,Covalent bond ,Helix ,Thermal ,Genetics ,Protein folding ,Molecular Biology - Abstract
Although the effect of thermal perturbations on protein structure has long been modeled in helical peptides, several details, such as the relation between the thermal stabilities of the propagating and nucleating segments of helices, remain elusive. We had earlier reported on the helix-nucleating propensities of covalent H-bond surrogate-constrained α-turns. Here, we analyze the thermal stabilities of helices that propagate along peptides appended to these α-helix nucleators using their NMR and far-UV CD spectra. Unconventional thermal folding of these helix models reveals that the helical fold in propagating backbones resists thermal perturbations as long as their nucleating template is intact. The threshold temperature of such resistance is also influenced by the extent of similarity between the natures of helical folds in the nucleating and propagating segments. Correlations between helicities and rigidities of helix-nucleating and helix-propagating segments reveal subtle interdependence, which explains cooperativity and residual helix formation during protein folding. more...
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- 2021
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6. Growth of linear perturbations in a universe with superfluid dark matter
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Sayantani Bera, David F. Mota, and Shreya Banerjee
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Physics ,Work (thermodynamics) ,Cosmology and Nongalactic Astrophysics (astro-ph.CO) ,010308 nuclear & particles physics ,media_common.quotation_subject ,Dark matter ,Linear regime ,FOS: Physical sciences ,Astronomy and Astrophysics ,Model parameters ,General Relativity and Quantum Cosmology (gr-qc) ,Astrophysics::Cosmology and Extragalactic Astrophysics ,01 natural sciences ,Galaxy ,Universe ,General Relativity and Quantum Cosmology ,Superfluidity ,Theoretical physics ,0103 physical sciences ,Linear growth ,media_common ,Astrophysics - Cosmology and Nongalactic Astrophysics - Abstract
The Lambda-Cold Dark Matter (LCDM) model agrees with most of the cosmological observations, but has some hindrances from observed data at smaller scales such as galaxies. Recently, Berezhiani and Khoury (2015) proposed a new theory involving interacting superfluid dark matter with three model parameters, which explains galactic dynamics with great accuracy. In the present work, we study the cosmological behaviour of this model in the linear regime of cosmological perturbations. In particular, we compute both analytically and numerically the matter linear growth factor and obtain new bounds for the model parameters which are significantly stronger than previously found. These new constraints come from the fact that structures within the superfluid dark matter framework grow quicker than in LCDM, and quite rapidly when the DM-baryon interactions are strong., Comment: 16 pages, 6 figures more...
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- 2023
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7. PERI.2 Goes to PreSchool and Beyond, in Search of AGI
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Selmer Bringsjord, Naveen Sundar Govindarajulu, John Slowik, James Oswald, Mike Giancola, John Angel, Shreya Banerjee, and Aidan Flaherty
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- 2023
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8. Constraining F(R) bouncing cosmologies through primordial black holes
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Shreya Banerjee, Theodoros PAPANIKOLAOU, and Emmanuel Saridakis
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- 2022
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9. Analysing the role of sleep quality, functional limitation and depressive symptoms in determining life satisfaction among the older Population in India: a moderated mediation approach
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Shreya Banerjee and BANDITA BORO
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Cross-Sectional Studies ,Sleep Quality ,Depression ,Public Health, Environmental and Occupational Health ,Humans ,India ,Personal Satisfaction ,Aged - Abstract
Background: Life satisfaction (LS), a useful construct in the study of psycho-social well-being, is an important indicator of healthy aging. With a view to investigate whether the improved longevity in India is accompanied by commensurate levels of well-being and contentment among the older adults , this study aimed to examine (1) the association between LS and sleep quality among older Indian adults aged 60 years and above (2) the mediating role of depression that accounts for the association and (3) the moderating role of functional limitation in this mediation. Methods: Cross-sectional data from the Longitudinal Ageing Study in India (LASI), Wave-1 (2017-18) was used. Pearson’s correlation coefficients were calculated to investigate the pair-wise relationship between sleep quality, depressive symptoms, functional limitation, and LS. Structural Equation Model was employed to analyse the moderated-mediated association between sleep quality and the level of LS. Results: Sleep quality had a direct effect (β=-0.12) as well as an indirect effect (β=-0.024) via depressive symptoms on LS, accounting for 83.6 and 16.4 per cent of the total effects, respectively. Also, the interaction term between poor seep quality and functional limitation was positive (β = 0.03, p Conclusion: The findings of the study suggested that ensuring both the physical as well as the mental well-being of the population during the life course may confer in later life the desired level of life satisfaction. more...
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- 2022
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10. Sneaking into the viral safe-houses: Implications of host components in regulating integrity and dynamics of rotaviral replication factories
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Pritam, Chandra, Shreya, Banerjee, Priyanka, Saha, Mamta, Chawla-Sarkar, and Upayan, Patra
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Rotavirus ,Microbiology (medical) ,Infectious Diseases ,Immunology ,Animals ,Viral Nonstructural Proteins ,Virus Replication ,Antiviral Agents ,Microbiology ,Cell Line ,RNA, Double-Stranded - Abstract
The biology of the viral life cycle essentially includes two structural and functional entities—the viral genome and protein machinery constituting the viral arsenal and an array of host cellular components which the virus closely associates with—to ensure successful perpetuation. The obligatory requirements of the virus to selectively evade specific host cellular factors while exploiting certain others have been immensely important to provide the platform for designing host-directed antiviral therapeutics. Although the spectrum of host-virus interaction is multifaceted, host factors that particularly influence viral replication have immense therapeutic importance. During lytic proliferation, viruses usually form replication factories which are specialized subcellular structures made up of viral proteins and replicating nucleic acids. These viral niches remain distinct from the rest of the cellular milieu, but they effectively allow spatial proximity to selective host determinants. Here, we will focus on the interaction between the replication compartments of a double stranded RNA virus rotavirus (RV) and the host cellular determinants of infection. RV, a diarrheagenic virus infecting young animals and children, forms replication bodies termed viroplasms within the host cell cytoplasm. Importantly, viroplasms also serve as the site for transcription and early morphogenesis of RVs and are very dynamic in nature. Despite advances in the understanding of RV components that constitute the viroplasmic architecture, knowledge of the contribution of host determinants to viroplasm dynamicity has remained limited. Emerging evidence suggests that selective host determinants are sequestered inside or translocated adjacent to the RV viroplasms. Functional implications of such host cellular reprogramming are also ramifying—disarming the antiviral host determinants and usurping the pro-viral components to facilitate specific stages of the viral life cycle. Here, we will provide a critical update on the wide variety of host cellular pathways that have been reported to regulate the spatial and temporal dynamicity of RV viroplasms. We will also discuss the methods used so far to study the host-viroplasm interactions and emphasize on the potential host factors which can be targeted for therapeutic intervention in the future. more...
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- 2022
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11. Determinants of rural-urban differential in healthcare utilization among the elderly population in India
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Shreya Banerjee
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Rural Population ,medicine.medical_specialty ,Population ageing ,Urban Population ,India ,Demographic transition ,03 medical and health sciences ,0302 clinical medicine ,Universal Health Insurance ,Health care ,Humans ,Medicine ,030212 general & internal medicine ,Socioeconomics ,Socioeconomic status ,Aged ,Health inequality ,Elderly population ,Poverty ,business.industry ,Research ,030503 health policy & services ,Public health ,Rural-urban disparity ,Public Health, Environmental and Occupational Health ,Demographic burden ,Patient Acceptance of Health Care ,Health equity ,Decomposition analysis ,Socioeconomic Factors ,Rural area ,Public aspects of medicine ,RA1-1270 ,0305 other medical science ,business - Abstract
Background Population aging poses a demographic burden on a country such as India with inadequate social security systems and very low public investment in health sector. This challenge of accelerated demographic transition is coupled by the rural-urban disparity in access to healthcare services among the elderly people in India. An important objective of India’s National Health Policy (2017) is to “progressively achieve universal health coverage” which is posited upon mitigating the sub-national disparity that necessitates identifying the drivers of the disparity for targeted policy intervention. This study, therefore, makes an attempt towards the exploration of the prominent contributory factors behind the rural-urban gap in utilisation of healthcare among the older population in India. Methods The analysis has been done by using the unit level data of Social Consumption: Health (Schedule number 25.0) of the 75th round of the National sample Survey conducted during July 2017–June 2018. Two binary logistic models have been proposed to capture the crude and the adjusted association between health seeking behaviour and place of residence (rural/ urban). To compute the group differences (between rural and urban) in the rate of healthcare utilization among the elderly population in India and to decompose these differences into the major contributing factors, Fairlie’s decomposition method has been employed. Results The logistic regression models established a strong association between place of residence and likelihood of healthcare utilisation among the Indian elderly people. The results of the Fairlie’s decomposition analysis revealed considerable rural-urban inequality disfavouring the rural residents and health care utilisation was found to be 7 percentage points higher among the older population residing in urban India than their rural counterparts. Level of education and economic status, both of which are indicators of a person’s Socio-Economic Status, were the two major determinants of the existing rural-urban differential in healthcare utilisation, together explaining 41% of the existing rural-urban differential. Conclusion Public health care provisions need to be strengthened both in terms of quality and outreach by way of greater public investments in the health sector and by building advanced health infrastructure in the rural areas. Implementation of poverty alleviation programmes and ensuring social-security of the elderly are also indispensable in bringing about equity in healthcare utilisation. more...
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- 2021
12. A regression-based three-phase approach to assess outdoor thermal comfort in informal micro-entrepreneurial settings in tropical Mumbai
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Shreya Banerjee, Ariane Middel, and Subrata Chattopadhyay
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Analysis of covariance ,Atmospheric Science ,education.field_of_study ,Variables ,Ecology ,Health, Toxicology and Mutagenesis ,media_common.quotation_subject ,Population ,Temperature ,Linear model ,Thermal comfort ,Humidity ,Microclimate ,Logistic regression ,Megacity ,Surveys and Questionnaires ,Statistics ,Humans ,Environmental science ,Thermosensing ,Seasons ,Urban heat island ,education ,media_common - Abstract
Urban heat poses a public health risk to the residents of megacities in developing countries because the population spends a significant amount of time outdoors to work and socialize with limited cooling resources. Understanding the drivers of outdoor comfort and heat stress in informal work settings is important to design climate-sensitive outdoor spaces and reduce heat vulnerability. We present outdoor thermal comfort perceptions (OTCPs) of people engaged in outdoor micro entrepreneurial activities in Mumbai using seasonal surveys and biometeorological observations. We propose a three-phase approach to analyze the relative importance of climatic and non-climatic variables for OTCPs. The first phase evaluates the seasonal and intra-neighborhood variation of thermal sensation votes (TSV) with respect to physiological equivalent temperature (PET) and air temperature. Second, we include physiological parameters to evaluate the seasonal and intra-neighborhood variation of overall sensation votes (OSV). Third, we consider aggregated survey responses and include behavioral and perceptual variables to determine their relative significance. We employ three linear modeling techniques to assess model performance in explaining the variability of OTCP using OSV as dependent variable. Results reveal that microclimatic parameters alone are unable to explain the variability of OTCP. Our results yield a neutral PET value (PETneutral) of 23.75 °C for Mumbai in the winter. PETneutral was higher for activities at the clothing market compared to other micro entrepreneurial activities. Acclimatization significantly improved comfort in the summer, while evaporative cooling was beneficial in the winter. Further, an ANCOVA and ordinal logistic regressions demonstrate the importance of behavioral attributes (presence in the location, expectation, beverage intake) in explaining the variance in OTCP. Our study also reveals that wind speed and humidity play an important role in shaping overall comfort in the Mumbai neighborhoods. more...
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- 2021
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13. A Formal OLAP Algebra for NoSQL based Data Warehouses
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Shreya Banerjee, Anirban Sarkar, Narayan C. Debnath, and Sourabh Bhaskar
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Creative visualization ,General Computer Science ,Database ,Computer science ,Semantics (computer science) ,Online analytical processing ,media_common.quotation_subject ,InformationSystems_DATABASEMANAGEMENT ,020206 networking & telecommunications ,02 engineering and technology ,Ontology (information science) ,computer.software_genre ,NoSQL ,Data warehouse ,Data cube ,Formal specification ,0202 electrical engineering, electronic engineering, information engineering ,020201 artificial intelligence & image processing ,Electrical and Electronic Engineering ,computer ,media_common - Abstract
NoSQL solutions are started to be increasingly used in modern days’ Data Warehouses (DW). However, business analysts face challenges when performing On Line Analytical Processing (OLAP) queries on these NoSQL systems. The lack of uniform representation of various OLAP operations over different types of NoSQL based DWs is one of them. In addition, deficiency of precise semantics in OLAP operations create obstacles to effective query interpretation over distinct types DWs. This paper is aiming to deal with aforementioned challenges. Formal and rigorous specification are represented in this paper for different kinds of OLAP operators and operations. These precise specifications are capable to analyse business queries. Further, the proposed formal specifications are implemented in a document-oriented database using a suitable case study. In addition, the proposed approach aids efficient visualization techniques of data cubes over NoSQL based DWs. more...
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- 2021
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14. Remote State Design for Efficient Quantum Metrology with Separable and Non-Teleporting States
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Shreya Banerjee, Rahul Raj, and Prasanta K. Panigrahi
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Physics and Astronomy (miscellaneous) ,Computer science ,Estimation theory ,quantum metrology ,Astronomy and Astrophysics ,Statistical and Nonlinear Physics ,Quantum Fisher information ,01 natural sciences ,Teleportation ,lcsh:QC1-999 ,Atomic and Molecular Physics, and Optics ,010305 fluids & plasmas ,Separable state ,Quantum state ,quantum teleportation ,0103 physical sciences ,Quantum metrology ,Statistical physics ,Quantum information ,parameter estimation ,010306 general physics ,Quantum ,lcsh:Physics ,Quantum teleportation ,Werner states - Abstract
Measurements leading to the collapse of states and the non-local quantum correlations are the key to all applications of quantum mechanics as well as in the studies of quantum foundation. The former is crucial for quantum parameter estimation, which is greatly affected by the physical environment and the measurement scheme itself. Its quantification is necessary to find efficient measurement schemes and circumvent the non-desirable environmental effects. This has led to the intense investigation of quantum metrology, extending the Cramér–Rao bound to the quantum domain through quantum Fisher information. Among all quantum states, the separable ones have the least quantumness, being devoid of the fragile non-local correlations, the component states remain unaffected in local operations performed by any of the parties. Therefore, using these states for the remote design of quantum states with high quantum Fisher information can have diverse applications in quantum information processing, accurate parameter estimation being a prominent example, as the quantum information extraction solely depends on it. Here, we demonstrate that these separable states with the least quantumness can be made extremely useful in parameter estimation tasks, and further show even in the case of the shared channel inflicted with the amplitude damping noise and phase flip noise, there is a gain in Quantum Fisher information (QFI). We subsequently pointed out that the symmetric W states, incapable of perfectly teleporting an unknown quantum state, are highly effective for remotely designing quantum states with high quantum Fisher information. more...
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- 2021
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15. Understanding the anomaly of cis-trans isomerism in Pro-His sequence
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Sunil K. Gupta, Shreya Banerjee, and Erode N. Prabhakaran
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Magnetic Resonance Spectroscopy ,Isomerism ,Organic Chemistry ,Clinical Biochemistry ,Drug Discovery ,Pharmaceutical Science ,Molecular Medicine ,Peptides ,Molecular Biology ,Biochemistry - Abstract
The anomalous absence of cisPro stabilizing C
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- 2022
16. Targeting the Achilles' Heel of Multidrug-Resistant
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Ronit Vogt, Sionov, Shreya, Banerjee, Sergei, Bogomolov, Reem, Smoum, Raphael, Mechoulam, and Doron, Steinberg
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Methicillin-Resistant Staphylococcus aureus ,Staphylococcus aureus ,Biochemical Phenomena ,Polyunsaturated Alkamides ,Humans ,Arachidonic Acids ,Staphylococcal Infections ,Anti-Bacterial Agents ,Endocannabinoids ,GTP Phosphohydrolases - Abstract
Antibiotic-resistant
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- 2022
17. Quercetin, a flavonoid, combats rotavirus infection by deactivating rotavirus-induced pro-survival NF-κB pathway
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Shreya Banerjee, Rakesh Sarkar, Arpita Mukherjee, Shin-ichi Miyoshi, Kei Kitahara, Prolay Halder, Hemanta Koley, and Mamta Chawla-Sarkar
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Microbiology (medical) ,Microbiology - Abstract
Rotavirus (RV) is the leading cause of acute gastroenteritis and watery diarrhea in children under 5 years accounting for high morbidity and mortality in countries with poor socioeconomic status. Although vaccination against RV has been implemented in more than 100 countries, the efficacy of vaccine has been challenged in low-income settings. The lack of any FDA-approved drug against RV is an additional concern regarding the treatment associated with rotavirus-induced infantile death. With the purpose for the discovery of anti-RV therapeutics, we assessed anti-rotaviral potential of quercetin, a well-characterized antioxidant flavonoid.In vitrostudy revealed that quercetin treatment resulted in diminished production of RV-SA11 (simian strain) viral particles in a concentration-dependent manner as estimated by the plaque assay. Consistent with this result, Western blot analysis also revealed reduced synthesis of viral protein in quercetin-treated RV-SA11-infected MA104 cells compared to vehicle (DMSO) treated controls. Not surprisingly, infection of other RV strains A5-13 (bovine strain) and Wa (Human strain) was also found to be abridged in the presence of quercetin compared to DMSO. The IC50of quercetin against three RV strains ranges between 2.79 and 4.36 Mm, and S.I. index is greater than 45. Concurrent to thein vitroresults,in vivostudy in mice model also demonstrated reduced expression of viral proteins and viral titer in the small intestine of quercetin-treated infected mice compared to vehicle-treated infected mice. Furthermore, the result suggested anti-rotaviral activity of quercetin to be interferon-independent. Mechanistic study revealed that the antiviral action of quercetin is co-related with the inhibition of RV-induced early activation of NF-κB pathway. Overall, this study delineates the strong anti-RV potential of quercetin and also proposes it as future therapeutics against rotaviral diarrhea. more...
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- 2022
18. Qualitative Mechanical Problem-Solving by Artificial Agents
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Shreya Banerjee, Selmer Bringsjord, Michael Giancola, and Naveen Sundar Govindarajulu
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Qualitative mechanical problem-solving (QMPS) is central to human-level intelligence. Human agents use their capacity for such problem-solving to succeed in tasks as routine as opening the tap to drink or hanging a picture on the wall, as well as for more sophisticated tasks in demanding jobs in today’s economy (e.g., emergency medicine, plumbing, hydraulic machinery, & driving). Unfortunately, artificial agents (including specifically robots) of today lack the capacity in question. Our work takes QMPS to fall under the general, longstanding AI area of qualitative reasoning (QR), historically an intensely logic-based affair. We embrace this history, and take new, further steps to advance QMPS. The Bennett Mechanical Comprehension Tests (BMCT-I and BMCT-II) assess a human’s ability to solve QMPS problems, and are used in the real world by many employers to evaluate job candidates. Building on the work of others who have attacked BMCT under the rubric of Psychometric AI (PAI), we introduce one of our novel algorithms (A_B1) in a family (A_B) of such for QMPS as required by BMCT, illustrate via case studies, report time-based performance of A_B1, and assess our progress with an eye to future work in which our approach is extended to a sub-class of algorithms in A_B that exploit the power of argument-based nonmonotonic logic, and leverage the success of transformer models to enhance their efficiency. more...
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- 2022
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19. A kinetic method for detecting intramolecular peptide H-bonds
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Damodara N. Reddy, Shreya Banerjee, and Erode N. Prabhakaran
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chemistry.chemical_classification ,Stereochemistry ,Hydrogen bond ,Chemistry ,Kinetics ,First-order reaction ,technology, industry, and agriculture ,Charge (physics) ,Peptide ,macromolecular substances ,General Chemistry ,Kinetic energy ,Catalysis ,Intramolecular force ,Materials Chemistry ,lipids (amino acids, peptides, and proteins) ,Electronic properties - Abstract
The current method for the detection of peptide hydrogen bond (PHB) formation places charge donors/acceptors (D/A) at the N-/C-termini of the peptides involved in the putative PHB. The efficiency of the charge transfer influences the kinetics of the first order reaction at A and hence reports on the formation and electronic properties of the PHB. more...
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- 2021
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20. Evaluation of Liposomal Formulations of Quercetin against Promonocytic Human Myeloid Leukemia Cell Line
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Shila Elizabeth Besra, Shreya Banerjee, and Debasis Dutta
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Liposome ,chemistry.chemical_compound ,Cell culture ,Chemistry ,Cancer research ,Pharmaceutical Science ,Myeloid leukemia ,Quercetin - Published
- 2020
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21. Cytotoxic Activity of Liposomal Formulations of Quercetin on Ovarian Cancer Cells and Normal Human Embryonic Kidney Cells
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Debasis Dutta, Shreya Banerjee, and Shila Elizabeth Besra
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Kidney ,Liposome ,business.industry ,Pharmaceutical Science ,Embryonic stem cell ,chemistry.chemical_compound ,medicine.anatomical_structure ,chemistry ,medicine ,Ovarian cancer cells ,Cancer research ,Cytotoxic T cell ,Quercetin ,business - Published
- 2020
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22. H-Bond Surrogate-Stabilized Shortest Single-Turn α-Helices: sp2 Constraints and Residue Preferences for the Highest α-Helicities
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Ankur Kumar, Erode N. Prabhakaran, Shreya Banerjee, and Sunit Pal
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Circular dichroism ,Tetrapeptide ,Hydrogen bond ,Chemistry ,General Chemical Engineering ,Context (language use) ,General Chemistry ,Article ,Turn (biochemistry) ,Residue (chemistry) ,Crystallography ,Covalent bond ,Native state ,QD1-999 - Abstract
Short α-helical sequences of proteins fail to maintain their native conformation when taken out of their protein context. Several covalent constraints have been designed, including the covalent H-bond surrogate (HBS)—where a peptide backbone i + 4 → i H-bond is replaced by a covalent surrogate—to nucleate α-helix in short sequences (>7 < 15 amino acids). But constraining the shortest sequences (four amino acids) into a single α-helical turn is still a significant challenge. Here, we introduce an HBS model that can be placed in unstructured tetrapeptides without excising any of its residues, and that biases them predominantly into remarkably stable single α-helical turns in varying solvents, pH values, and temperatures. Circular dichroism (CD), Fourier transform infrared (FT-IR) absorption, one-dimensional (1D)-NMR, two-dimensional (2D)-NMR spectral and computational analyses of the HBS-constrained tetrapeptide analogues reveal that (a) the number of sp2 atoms in the HBS-constrained backbone influences their predominance and rigidity in the α-helical conformation; and (b) residue preferences at the unnatural HBS-constrained positions influence their α-helicities, with Moc[GFA]G-OMe (1a) showing the highest known α-helicity (θn→π*MRE ∼−25.3 × 103 deg cm2 dmol–1 at 228 nm) for a single α-helical turn. Current findings benefit chemical biological applications desiring predictable access to single α-helical turns in tetrapeptides. more...
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- 2020
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23. Recent progress of circular RNAs in different types of human cancer: Technological landscape, clinical opportunities and challenges (Review)
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Ashish Ranjan, Sharma, Shreya, Banerjee, Manojit, Bhattacharya, Abinit, Saha, Sang-Soo, Lee, and Chiranjib, Chakraborty
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MicroRNAs ,Cancer Research ,Oncology ,Neoplasms ,RNA Splicing ,Humans ,RNA, Circular ,Biomarkers - Abstract
Circular RNAs (circRNAs) are a novel class of endogenous non‑coding RNAs that have been recently regarded as functionally active. CircRNAs are remarkably stable and known to possess several biological functions such as microRNA sponging, regulating transcription and splicing and occasionally acting as polypeptide‑producing templates. CircRNAs show tissue‑specific expression and have been reported to be associated with the progression of several types of malignancies. Given the recent progress in genome sequencing and bioinformatics techniques, a rapid increment in the biological role of circRNAs has been observed. Concurrently, the patent search from different patent databases shows that the patent number of circRNA is increasing very quickly. These phenomena reveal a rapid development of the technological landscape. In the present review, the recent progress on circRNAs in various kinds of cancer has been investigated and their function as biomarkers or therapeutic targets and their technological landscape have been appreciated. A new insight into circRNAs structure and functional capabilities in cancer has been reviewed. Continually increasing knowledge on their critical role during cancer progression is projecting them as biomarkers or therapeutic targets for various kinds of cancer. Thus, recent updates on the functional role of circRNAs in terms of the technological landscape, clinical opportunities (biomarkers and therapeutic targets), and challenges in cancer have been illustrated. more...
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- 2022
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24. Validating ENVI-met for Relative Humidity (RH) in high-density temporary encroachment spaces in the streets of tropical Indian megacities
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Shreya Banerjee, Ariane Middel, and Subrata Chattopadhyay
- Abstract
Informal settlements in developing countries have distinct socio-ecological, ethnocultural, and economic patterns. People spend a significant amount of time in these outdoor spaces and modify them with lightweight shade materials (encroachments) according to their needs. We seek to investigate how accurately the 3 Dimensional Computational Fluid Dynamics (CFD) software ENVI-met models Relative Humidity (RH) in the streets of such heterogeneous urban forms in tropical Mumbai and Kolkata in India. Three neighborhoods with similar forms and functions were chosen in each city after (Banerjee et al., 2021), (Banerjee et al., 2020) to perform 12 microclimate simulations (12 hours) in summer and winter. Partial encroachments were modeled using the single z-wall feature of ENVI-met. This is the first study to validate ENVI-met seasonal RH simulations in complex neighborhoods geometries, i.e. an elevated vehicular corridor, a large riverbank, and temporary encroachments.The research concludes that few studies have validated RH so far. Our validation study reports ENVI-met thoroughly overestimates RH in most cases. In Mumbai, Fashion Street has significant greenery and a Gymkhana nearby, attributed to high RH during the morning hours, especially in hot-humid summers. Naturally, RH decreases with an increase in Air Temperature (Ta). For Dadar, in summer, the deep canyon has the highest RH. This pattern is opposite to the observed summer Ta and Mean Radiant Temperature (Tmrt) pattern in Dadar in both seasons. For Mallickghat, RH decreases with increasing Ta. For both seasons, the deep canyon shows the highest RH profile due to the lack of wind flow in the canyon caused by the blockage of river wind by built structures. In Kumartuli, the deep canyon has the highest RH for both seasons, due to the lack of adequate wind flow from encroachment imparted roughness and trapped moisture in the canyon. This agrees with existing studies that show vegetation or other elements of roughness can block the wind flow or ventilation within a canyon. This deviation may be attributed to boundary conditions assumptions such as a neutrally stratified atmosphere, which is not always valid in cities with strong radiative input such as Kolkata and Mumbai. For Mallickghat, our result shows ENVI-met can predict RH well for a shallow canyon (R sq. = 0.77), although for the deep canyon, the RH prediction ability of ENVI-met is lower (R sq. = 0.59). Similar RH patterns between deep and shallow canyons in both neighborhoods may be due to anthropogenic heat-related discrepancies in deep canyons that can completely change the pattern of ambient RH. Overall, the study concludes that ENVI-met predicts RH well as the correlation between the measured data and simulation demonstrates consistency.Banerjee, S., Middel, A., & Chattopadhyay, S. (2020). Outdoor thermal comfort in various microentrepreneurial settings in hot humid tropical Kolkata : Human biometeorological assessment of objective and subjective parameters. Science of the Total Environment, 721, 137741. https://doi.org/10.1016/j.scitotenv.2020.137741Banerjee, S., Middel, A., & Chattopadhyay, S. (2021). A regression-based three-phase approach to assess outdoor thermal comfort in informal micro-entrepreneurial settings in tropical Mumbai. International Journal of Biometeorology. https://doi.org/https://doi.org/10.1007/s00484-021-02136-7 more...
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- 2022
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25. Luminosity Selection for Gamma Ray Burst
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Shreya Banerjee and Dafne Guetta
- Subjects
High Energy Astrophysical Phenomena (astro-ph.HE) ,Cosmology and Nongalactic Astrophysics (astro-ph.CO) ,Space and Planetary Science ,Astrophysics::High Energy Astrophysical Phenomena ,FOS: Physical sciences ,Astronomy and Astrophysics ,General Relativity and Quantum Cosmology (gr-qc) ,Astrophysics::Cosmology and Extragalactic Astrophysics ,Astrophysics - High Energy Astrophysical Phenomena ,General Relativity and Quantum Cosmology ,Astrophysics - Cosmology and Nongalactic Astrophysics - Abstract
There exists an inevitable scatter in intrinsic luminosity of Gamma Ray Bursts(GRBs). If there is relativistic beaming in the source, viewing angle variation necessarily introduces variation in the intrinsic luminosity function (ILF). Scatter in the ILF can cause a selection bias where distant sources that are detected have a larger median luminosity than those detected close by. Median luminosity divides any given population into equal halves. When the functional form of a distribution is unknown, it can be a more robust diagnostic than any that use trial functional forms. In this work we employ a statistical test based on median luminosity and apply it to test a class of models for GRBs. We assume that the GRB jet has a finite opening angle and that the orientation of the GRB jet is random relative to the observer.We calculate $L_{median}$ as a function of redshift by simulating GRBs empirically, theoretically and use the luminosity vs redshift {\it Swift} data in order to compare the theoretical results with the observed ones. The method accounts for the fact that at some redshifts there may be some GRBs that go undetected. We find that $L_{median}$ is extremely insensitive to the on-axis (i.e. maximal) luminosity of the jet., 9 pages, 9 figures, 3 tables, accepted for publication in A&A. arXiv admin note: substantial text overlap with arXiv:2010.04810 more...
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- 2022
26. An Ontology Based Approach towards End User Development of IoT
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Narayan C. Debnath, Shreya Banerjee, Giau Ung Van, Phat Tat Quang, and Dai Nguyen Thanh
- Abstract
Trigger-Action-Programming (TAP) is a most widely used End User Development (EUD) tool for Internet of Things (IoT). However, end users often cannot differentiate between distinct kinds of triggers and actions. They also make erroneous combinations of those. Consequently, inconsistencies, and bugs are exhibited in behavior of IoT objects. To resolve this issue, end users need to be guided to interpret different triggers, actions and their combinations effectively. In this case, precise representation of temporal and contextual aspects of triggers and actions can assist. Moreover, vast and growing numbers of IoT objects as well as increasing numbers customized rules create scalability issues. To address these drawbacks, this paper has proposed an upper level ontology named as Trigger Action Ontology (TAO) that provides meta rule semantics for TAP. The contribution of proposed ontology specification is to present formal semantics of temporal and contextual aspects of triggers and actions. Further, the ontology is implemented in Protégé. In addition, the expressiveness of the proposed ontology is illustrated using a suitable case study. more...
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- 2022
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27. ASSOCIATION OF GALECTIN-3 WITH ECHOCARDIOGRAPHIC MEASUREMENTS AND CARDIOVASCULAR OUTCOMES
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Shreya Banerjee, Lori B. Daniels, Alan S. Maisel, and Nicholas W. Wettersten
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Cardiology and Cardiovascular Medicine - Published
- 2023
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28. Understanding the Anomaly of Cis-Trans Isomerism in Pro-His Sequence
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Sunil K. Gupta, Shreya Banerjee, and Erode N. Prabhakaran
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History ,Polymers and Plastics ,Business and International Management ,Industrial and Manufacturing Engineering - Published
- 2022
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29. Drowsiness Detection System for Drivers Using 68 Coordinate System
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Cherie Vartika Stephen, Shreya Banerjee, and Rajat Kumar Behera
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- 2022
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30. Decomposing the rural-urban gap in the prevalence of undiagnosed, untreated and under-treated hypertension among older adults in India
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Shreya Banerjee and BANDITA BORO
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Rural Population ,Urban Population ,Hypertension ,Public Health, Environmental and Occupational Health ,Prevalence ,Humans ,India ,Life Style ,Aged - Abstract
Background Although awareness and treatment rates of hypertension have significantly improved in recent years, the prevalence of undiagnosed and untreated hypertension remains a major public health concern for Indian policymakers. While the urban–rural variation in the prevalence, diagnosis, control, and treatment of hypertension is reasonably well-documented, the explanation behind such variation remains poorly understood given the dearth of studies conducted on exploring the determinants of the rural–urban gap in the prevalence of undiagnosed, untreated, and uncontrolled hypertension in India. In view of this research gap, our paper aims to decompose the inter-group differences between rural and urban areas in undiagnosed, untreated, and undertreated hypertension among older adults in India into the major contributing factors. Methods Nationally representative data collected in the Longitudinal Ageing Study of India, Wave-1 (2017–18), was utilized for this study. Maximum-likelihood binary logistic-regression models were employed to capture the crude and adjusted associations between the place of residence and prevalence of undiagnosed, untreated, and undertreated hypertension. Fairlie’s decomposition technique was used to decompose the inter-group differences between rural and urban residents in the prevalence of undiagnosed, untreated, and undertreated hypertension among the older population in India, into the major contributing factors, in order to explore the pathways through which these differences manifest. Results The overall prevalence rates of undiagnosed, untreated, and undertreated hypertension among older adults were 42.3%, 6%, and 18.7%, respectively. However, the prevalence of undiagnosed and untreated hypertension was higher in rural areas, by 12.4 and 1.7 percentage-points, respectively, while undertreated hypertension was more prevalent in the urban areas (by 7.2 percentage-points). The decomposition analysis explained roughly 41% and 34% of the urban advantage over rural areas in the case of undiagnosed and untreated hypertension, while it explained 51% of the urban disadvantage in respect of undertreated hypertension. The rural–urban differentials in education and comorbidities accounted for the majority of the explained rural disadvantage in the prevalence of undiagnosed hypertension, explaining 13.51% and 13.27% of the gap, respectively. The regional factor was found to be the major driver behind urban advantage in the prevalence of untreated hypertension, contributing 37.47% to the overall gap. In the case of undertreated hypertension, education, comorbidities, and tobacco consumption were the major contributors to the urban–rural inequality, which accounted for 12.3%, 10.6%, and 9.8% of the gap, respectively. Conclusion Socio-economic and lifestyle factors seemed to contribute significantly to the urban–rural gap in undiagnosed, untreated and undertreated hypertension in India among older adults. There is an urgent need of creating awareness programmes for the early identification of hypertensive cases and regular treatment, particularly in under-serviced rural India. Interventions should be made targeting specific population groups to tackle inequality in healthcare utilization. more...
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- 2021
31. Exploring the role of financial empowerment in mitigating the gender differentials in subjective and objective health outcomes among the older population in India
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Shreya Banerjee and Pallabi Gogoi
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Multidisciplinary - Abstract
Background Despite the progress in achieving gender equality to a certain extent, women are found to be more susceptible to health disadvantages compared to men in the older ages. However, research in the Indian context has mainly remained restricted to subjective health that heavily depends on the individual’s perception, which may affect the validity of results. This study addresses this gap by complementing the investigation of the gender differentials in self-reported health outcomes (mobility and functional limitations) with that of objectively measured health status (hand-grip strength and static balance) among the older population of India. Besides, there is a dearth of literature that considers financial empowerment in explaining the gender differentials in health. Women’s ability to participate in household decision-making, especially for important matters like major purchases, including property, indicates their empowerment status. Furthermore, the ability to extend financial support can be considered an important ‘non-altruistic’ driver for kins to care for older adults, indirectly affecting their health and well-being. Thus, the present paper explores the influence of financial empowerment on gender differentials in poor health outcomes. Methods Using the Longitudinal Aging Study in India, Wave-1 (2017–18), six logistic regression models have been specified to capture the adjusted association between gender and poor health outcomes. The first three models successively control for the demographic and social support factors; socioeconomic factors and pre-existing health conditions; and financial empowerment indicators. The last three models investigate the interactions between gender and marital status, living arrangement and involvement in financial decisions, respectively. Results The findings reveal that women tend to be more perceptive about their physical discomfort than men and reported a higher prevalence of poor subjective health. In terms of objectively measured health status, older men had a higher prevalence of low hand-grip strength but a lower prevalence of poor balance. Gender demonstrated a strong, adjusted association with poor health outcomes among older adults. However, the magnitude of gender difference either shrunk considerably or became statistically insignificant for all the poor health outcomes after controlling the effect of indicators of financial empowerment. Further, the interaction between gender and involvement in financial matters demonstrated a stronger effect for men in reversing poor subjective health. Conclusion The study reinforced the positive effect of financial empowerment in mitigating gender disparity in health among older adults. more...
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- 2023
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32. Analysing impacts of urban morphological variables and density on outdoor microclimate for tropical cities: A review and a framework proposal for future research directions
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Shreya Banerjee, Graces Ching N. Y, Sin Kang Yik, Yuliya Dzyuban, Peter J. Crank, Rachel Pek Xin Yi, and Winston T.L. Chow
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Environmental Engineering ,Geography, Planning and Development ,Building and Construction ,Civil and Structural Engineering - Published
- 2022
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33. Quantum Image Representation on Clusters
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Arijit Mandal, Prasanta K. Panigrahi, and Shreya Banerjee
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business.industry ,Computer science ,Binary image ,Cluster (physics) ,Quantum entanglement ,Encryption ,business ,Representation (mathematics) ,Quantum ,Computational science ,Quantum computer ,Image (mathematics) - Abstract
We propose a novel scheme for quantum image representation using the cluster states (QIRC). This scheme is capable to represent images of any size and color. We emphasize the use of cluster states in this scheme due to its high entanglement and various experimental realization across several hardware. We also propose a secure image encryption scheme embedded with QIRC. Further, we discuss the possibility of QIRC to be implemented successfully with a real quantum device in the NISQ era, by executing example representations of a 2×2 and a 3×2 binary image on a real quantum processor provided by the IBM Quantum. more...
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- 2021
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34. Multimedia Text Summary Generator for Visually Impaired
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Jayashree R, Prerana Sirigeri, Shreya Banerjee, and Rachana B Karennavar
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User Friendly ,Multimedia ,Visually impaired ,Computer science ,Reading (process) ,media_common.quotation_subject ,Active listening ,computer.software_genre ,computer ,Automatic summarization ,Field (computer science) ,Generator (mathematics) ,media_common - Abstract
With the advancing methodologies in the field of NLP, text summarization have been evolved to its best since the beginning and is still under research. As the visually impaired have become a part of our society it gives us an opportunity to make use of the technological advances to make their lives easier. As even a normal person cannot sit listening to long audio news and doesn't have time reading long news articles, this gave us an inspiration that led to the idea of our project to generate concise and short summaries for the visually impaired people. This research work attempts to implement NLP summarization techniques to come up with the short summaries for the text extracted from the long audio files. The text from the audio files are to be extracted first using various api's which would be sent to summarize. Additionally this research work also plans to summarize multiple documents to a single short summary by getting its references from different news articles. To make it user friendly we are converting the generated summary back to audio format, which will be easier to listen to anywhere and anytime. It becomes our responsibility to contribute something back to society and this project will make the news reading easier and interesting to the people. more...
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- 2021
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35. Domain-specific requirements analysis framework: ontology-driven approach
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Shreya Banerjee and Anirban Sarkar
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Requirements engineering ,business.industry ,Computer science ,media_common.quotation_subject ,Software development ,Requirements validation ,020206 networking & telecommunications ,02 engineering and technology ,Ontology (information science) ,Computer Graphics and Computer-Aided Design ,Computer Science Applications ,Domain (software engineering) ,Hardware and Architecture ,Problem domain ,0202 electrical engineering, electronic engineering, information engineering ,020201 artificial intelligence & image processing ,Quality (business) ,business ,Software engineering ,Requirements analysis ,Software ,media_common - Abstract
Requirement engineering (RE) is the first track in the course of software development that represents and analyses the problem domain for suitable solutions. This improves the quality of the softwa... more...
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- 2019
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36. Outdoor thermal comfort research in transient conditions: A narrative literature review
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Yuliya Dzyuban, Graces N.Y. Ching, Sin Kang Yik, Adrian J. Tan, Shreya Banerjee, Peter J. Crank, and Winston T.L. Chow
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Urban Studies ,Ecology ,Management, Monitoring, Policy and Law ,Nature and Landscape Conservation - Published
- 2022
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37. Rotaviral nonstructural protein 5 (NSP5) promotes proteasomal degradation of up-frameshift protein 1 (UPF1), a principal mediator of nonsense-mediated mRNA decay (NMD) pathway, to facilitate infection
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Mamta Chawla-Sarkar, Rakesh Sarkar, Arpita Mukherjee, and Shreya Banerjee
- Subjects
Rotavirus ,Proteasome Endopeptidase Complex ,biology ,viruses ,Nonsense-mediated decay ,RNA ,Cell Biology ,Transfection ,Viral Nonstructural Proteins ,medicine.disease_cause ,Frameshift mutation ,Cell biology ,Nonsense Mediated mRNA Decay ,Ubiquitin ,Proteasome ,biology.protein ,medicine ,Ectopic expression ,Frameshift Mutation ,RNA Helicases - Abstract
Nonsense-mediated mRNA decay (NMD), a cellular RNA quality system, has been shown to be an ancestral form of cellular antiviral response that can restrict viral infection by targeting viral RNA for degradation or other various mechanisms. In support to this hypothesis, emerging evidences unraveled that viruses have evolved numerous mechanisms to circumvent or modulate the NMD pathway to ensure unhindered replication within the host cell. In this study, we investigated the potential interplay between the cellular NMD pathway and rotavirus (RV). Our data suggested that rotavirus infection resulted in global inhibition of NMD pathway by downregulating the expression of UPF1 in a strain independent manner. UPF1 expression was found to be regulated at the post-transcriptional level by ubiquitin-proteasome mediated degradation pathway. Subsequent studies revealed rotaviral non-structural protein 5 (NSP5) associates with UPF1 and promotes its cullin-dependent proteasome mediated degradation. Furthermore, ectopic expression of UPF1 during RV infection resulted in reduced expression of viral proteins and viral RNAs leading to diminished production of infective rotavirus particles, suggesting the anti-rotaviral role of UPF1. Finally, the delayed degradation kinetics of transfected rotaviral RNA in UPF1 and UPF2 depleted cells and the association of UPF1 and UPF2 with viral RNAs suggested that NMD targets rotaviral RNAs for degradation. Collectively, the present study demonstrates the antiviral role of NMD pathway during rotavirus infection and also reveals the underlying mechanism by which rotavirus overwhelms NMD pathway to establish successful replication. more...
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- 2021
38. Anandamide alters the membrane properties, halts the cell division and prevents drug efflux in multidrug resistant Staphylococcus aureus
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Raphael Mechoulam, Reem Smoum, Mark Feldman, Ronit Vogt Sionov, Shreya Banerjee, and Doron Steinberg
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0301 basic medicine ,Staphylococcus aureus ,Polyunsaturated Alkamides ,medicine.drug_class ,Science ,030106 microbiology ,Antibiotics ,Arachidonic Acids ,medicine.disease_cause ,Microbiology ,Article ,03 medical and health sciences ,chemistry.chemical_compound ,Medical research ,Drug Resistance, Multiple, Bacterial ,medicine ,DAPI ,Multidisciplinary ,Cell Membrane ,Anandamide ,Anti-Bacterial Agents ,Multiple drug resistance ,030104 developmental biology ,Mechanism of action ,chemistry ,Medicine ,lipids (amino acids, peptides, and proteins) ,Efflux ,medicine.symptom ,Intracellular ,Endocannabinoids - Abstract
Antibiotic resistance is a serious public health problem throughout the world. Overcoming methicillin and multidrug-resistant Staphylococcus aureus (MRSA/MDRSA) infections has become a challenge and there is an urgent need for new therapeutic approaches. We have previously demonstrated that the endocannabinoid Anandamide (AEA) can sensitize MRSA to antibiotics. Here we have studied the mechanism of action using a MDRSA clinical isolate that are sensitized by AEA to methicillin and norfloxacin. We found that AEA treatment halts the growth of both antibiotic-sensitive and antibiotic-resistant S. aureus. The AEA-treated bacteria become elongated and the membranes become ruffled with many protrusions. AEA treatment also leads to an increase in the percentage of bacteria having a complete septum, suggesting that the cell division is halted at this stage. The latter is supported by cell cycle analysis that shows an accumulation of bacteria in the G2/M phase after AEA treatment. We further observed that AEA causes a dose-dependent membrane depolarization that is partly relieved upon time. Nile red staining of the bacterial membranes indicates that AEA alters the membrane structures. Importantly, 4′-6-diamidino-2-phenylindole (DAPI) accumulation assay and ethidium bromide efflux (EtBr) assay unveiled that AEA leads to a dose-dependent drug accumulation by inhibiting drug efflux. In conclusion, our study demonstrates that AEA interferes with cell division, alters the membrane properties of MDRSA, and leads to increased intracellular drug retention, which can contribute to the sensitization of MDRSA to antibiotics. more...
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- 2021
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39. Characterization of the Expression of Vacuolar Protein Sorting 11 (Vps11) in Mammalian Oligodendrocytes
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Shreya Banerjee, Ryan Thummel, Robert P. Skoff, Xixia Luo, and Denise Bessert
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Proteolipid protein 1 ,Mice, 129 Strain ,genetic neurodevelopmental and neurodegenerative disorders ,Vesicular Transport Proteins ,Gene Expression ,oligodendrocytes ,Neurosciences. Biological psychiatry. Neuropsychiatry ,White matter ,Myelin ,Mice ,medicine ,Animals ,neurodegenerative diseases ,lysosomal storage diseases ,Cells, Cultured ,Myelin Sheath ,Vacuolar protein sorting ,Mice, Knockout ,Original Paper ,biology ,General Neuroscience ,neurodevelopmental disorders ,myelination ,Oligodendrocyte ,Ashkenazi jews ,Myelin basic protein ,Cell biology ,Mice, Inbred C57BL ,Oligodendroglia ,medicine.anatomical_structure ,nervous system ,biology.protein ,Axoplasmic transport ,Neurology (clinical) ,RC321-571 - Abstract
A founder mutation in human VPS11 ( Vacuolar Protein Sorting 11) was recently linked to a genetic leukoencephalopathy in Ashkenazi Jews that presents with the classical features of white matter disorders of the central nervous system (CNS). The neurological deficits include hypomyelination, hypotonia, gradual loss of vision, and seizures. However, the cells expressing the mutation were not identified. Here we describe, using immunocytochemistry, the strong expression of Vps11 in mouse oligodendrocytes and, specifically, its localization with Myelin Associated Glycoprotein (MAG) in the inner tongue of myelin. In longitudinal sections of myelin, it forms a bead-like structure, alternating with Myelin Basic Protein (MBP). Immunofluorescent staining with Vps11 and neurofilament proteins indicates the absence of Vps11 in axons in vivo. Finally, changes in Vps11 expression are associated with altered proteolipid protein (PLP) levels based upon mice with duplications or deletions of the Plp1 gene. To determine potential functional contributions of Vps11, we combined Vps11 with Platelet Derived Growth Factor Receptor-α (PDGFRα) in vitro and in vivo: in both conditions, co-localization of the two proteins was frequently found in round vesicles of OPCs/oligodendrocytes, suggesting retrograde transport for degradation by the endolysosomal system. Neuron-to-glial communication has been invoked to explain degenerative changes in myelin followed by degenerative changes in axons, and vice versa; but to our knowledge, no specific proteins in retrograde transport from the myelin inner tongue to oligodendrocyte perikarya have been identified. The identification of mutations in VPS11 and its localization at the axon-myelin interface should open new avenues of research. more...
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- 2021
40. Targeting the Achilles’ Heel of Multidrug-Resistant Staphylococcus aureus by the Endocannabinoid Anandamide
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Ronit Vogt Sionov, Shreya Banerjee, Sergei Bogomolov, Reem Smoum, Raphael Mechoulam, and Doron Steinberg
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Inorganic Chemistry ,Organic Chemistry ,anandamide ,antibiotic resistance ,autolysins ,endocannabinoids ,drug sensitization ,Staphylococcus aureus ,transmembrane transport ,wall teichoic acid ,General Medicine ,Physical and Theoretical Chemistry ,Molecular Biology ,Spectroscopy ,Catalysis ,Computer Science Applications - Abstract
Antibiotic-resistant Staphylococcus aureus is a major health issue that requires new therapeutic approaches. Accumulating data suggest that it is possible to sensitize these bacteria to antibiotics by combining them with inhibitors targeting efflux pumps, the low-affinity penicillin-binding protein PBP2a, cell wall teichoic acid, or the cell division protein FtsZ. We have previously shown that the endocannabinoid Anandamide (N-arachidonoylethanolamine; AEA) could sensitize drug-resistant S. aureus to a variety of antibiotics, among others, through growth arrest and inhibition of drug efflux. Here, we looked at biochemical alterations caused by AEA. We observed that AEA increased the intracellular drug concentration of a fluorescent penicillin and augmented its binding to membrane proteins with concomitant altered membrane distribution of these proteins. AEA also prevented the secretion of exopolysaccharides (EPS) and reduced the cell wall teichoic acid content, both processes known to require transporter proteins. Notably, AEA was found to inhibit membrane ATPase activity that is necessary for transmembrane transport. AEA did not affect the membrane GTPase activity, and the GTPase cell division protein FtsZ formed the Z-ring of the divisome normally in the presence of AEA. Rather, AEA caused a reduction in murein hydrolase activities involved in daughter cell separation. Altogether, this study shows that AEA affects several biochemical processes that culminate in the sensitization of the drug-resistant bacteria to antibiotics. more...
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- 2022
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41. An Ontology-Based Approach to Automated Test Case Generation
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Shreya Banerjee, Anirban Sarkar, and Narayan C. Debnath
- Subjects
Test case ,Computer science ,business.industry ,White-box testing ,Software requirements specification ,Domain knowledge ,Usability ,Semantic reasoner ,Ontology (information science) ,Software engineering ,business ,Domain (software engineering) - Abstract
Software testing is as old as software itself. However, the techniques, tools, and processes used by researchers to ensure product quality are constantly evolving. Application of knowledge management technologies in automated test case generation is one of them. This paper addressed the issue of ontology-based automated test case generation in the case of black box testing. In this context, several challenges are present in existing literature. The prime challenges among are (1) major approaches are confined to a specific domain, (2) least consideration about modified domain knowledge, (3) lack of methodology for auto-identification of pre-conditions and different combinations among test input data and (4) poor requirements and domain coverage. The proposed methodology, in this paper, is aimed to resolve these issues by devising a rule-based reasoner that can auto generate the test cases. The proposed method takes an ontology-based requirements specification as an input. The novelty of the proposed method is the specification of domain independent inference rules based on which the devised reasoner can generate test cases for different domains and systems automatically. This contribution of the proposed work facilitates in improving both user’s requirements coverage and domain coverage. The devised reasoned, in this paper, is implemented in Apache Jena (Apache Jena, https://jena.apache.org ., Accessed 2020/09/04). In addition, the usability of the proposed work is illustrated using a suitable case study. more...
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- 2021
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42. Bioengineering of Plant System with CRISPR Technology: A Review Perspective
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Shreya Banerjee, Mayank Srivastava, Swarnav Bhakta, and Divya Srivastava
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Genome editing ,Process (engineering) ,Cas9 ,Dna breaks ,Engineering tool ,CRISPR ,Biochemical engineering ,Plant system ,Biology ,Living body - Abstract
Plants are the source of food, fresh oxygen, useful metabolites, and they can be said as source of life on our planet. These green autotrophic creatures are subjected to a number of challenges throughout their life cycle from sowing the seed to post-harvesting of the yield. These challenges may be due to some biotic factors like pathogens, insects and other living body which compete with plants and kill them or may be any abiotic factor-like environmental condition including drought, soil salinity, humidity and many more like climate change. To solve this problem and provide a better life to the plants, bioengineering is really helpful. With the help of different tools of bioengineering, the plant variety can be improved, and it can equally fight against all type of stress conditions not only this but also the productivity can also be improved as good nutritional food is the need of today. Although, till today, a number of genome editing tools have been introduced, but all have some limitations. To overcome all the problems, a very powerful tool “CRISPR technology” came into the light. CRISPR stands for clustered regularly interspaced short palindromic repeats, and it was first discovered in prokaryotic cells to protect them from viral infection by developing an adaptive immune system. This concept was used to develop a new genetic engineering tool named as CRISPR technology, and this advancement has proved itself as a revolutionizing event for the scientific world. CRISPR technology generates targeted DNA breaks in living cells with the tendency to introduce a number of positive variations in DNA during the process of cellular DNA repair, and this tendency makes CRISPR more efficient than the other genetic engineering tools for plant system. This chapter summarizes all conceptual information about CRISPR technology, recent advancement in this technique and also discusses why CRISPR technology is now considered as the best possible technology to improve crop varieties. more...
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- 2021
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43. Liberalisation and Structural Change with Rural–Urban Dichotomies: A General Equilibrium Outlook
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Shreya Banerjee and Soumyatanu Mukherjee
- Subjects
Competition (economics) ,General equilibrium theory ,Liberalization ,Capital (economics) ,Nonfarm payrolls ,media_common.quotation_subject ,Economics ,Retrenchment ,International economics ,Foreign direct investment ,Welfare ,media_common - Abstract
This chapter deals with the structural change and employment outcomes of welcoming FDI and opening the import-competing sector of the economy to more foreign competition within the framework of a three-sector mobile capital version of Harris–Todaro (HT hereafter) type general equilibrium model, describing rural–urban migration, with the existence of a rural nonfarm sector producing non-traded intermediate input. Main findings support the fact that because of different trade reform policies, registered urban manufacturing sectors have experienced increased competition from foreign markets which has forced them to switch towards relatively capital-intensive techniques of production, resulting in the retrenchment of relatively less productive workers and ending up with jobless pattern of growth in these sectors during the liberalised regime. These results are predominantly fascinating for the counterintuitiveness of the predictions, as opposed to the standard HT model. more...
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- 2021
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44. Helix-Coil Transition at a Glycine Following a Nascent α-Helix: A Synergetic Guidance Mechanism for Helix Growth
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Sunit Pal, Shreya Banerjee, and Erode N. Prabhakaran
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Protein Conformation, alpha-Helical ,010304 chemical physics ,Transition (genetics) ,Chemistry ,Glycine ,Temperature ,Molecular Dynamics Simulation ,010402 general chemistry ,01 natural sciences ,Random coil ,0104 chemical sciences ,Mechanism (engineering) ,Folding (chemistry) ,Electromagnetic coil ,0103 physical sciences ,Helix ,Biophysics ,Physical and Theoretical Chemistry - Abstract
A detailed understanding of forces guiding the rapid folding of a polypeptide from an apparently random coil state to an ordered α-helical structure following the rate-limiting preorganization of the initial three residue backbones into helical conformation is imperative to comprehending and regulating protein folding and for the rational design of biological mimetics. However, several details of this process are still unknown. First, although the helix-coil transition was proposed to originate at the residue level ( more...
- Published
- 2020
45. Scaling Ecosystem-based Adaptation to Climate Change in Maharashtra, India
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Marcella D’Souza, Larissa Stiem-Bhatia, Arjuna Srinidhi, Eshwer Kale, Abha Indurkar, Shreya Banerjee, and Naman Gupta
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Geography ,business.industry ,Environmental resource management ,Climate change ,Ecosystem ,Adaptation ,business ,Scaling - Abstract
An analysis of policies and programmes aiming to scale ecosystem-based adaptation to climate change in Maharashtra, India.
- Published
- 2020
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46. An electromechanically coupled intrinsic, mixed variational formulation for geometrically nonlinear smart composite beam
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Sitikantha Roy, P.M.G.B. Asdaque, and Shreya Banerjee
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Work (thermodynamics) ,Nonlinear system ,Spectrum analyzer ,Computer science ,Applied Mathematics ,Modeling and Simulation ,Composite number ,Degrees of freedom (statistics) ,Structure (category theory) ,Applied mathematics ,Beam (structure) ,Composite beams - Abstract
The work presented in this article is the outcome of a combined strategy of a mathematical tool for 2D cross-sectional analysis, i.e., Variational Asymptotic Method (VAM) as well as the 1D exact beam analyzer, i.e., the intrinsic mixed variational formulation for modeling and analysis of Piezoelectric-laminated composite beams. This work talks about a novel approach of mixed variational formulation to analyze a two-way electromechanically coupled piezoelectric composite beam. In a classical intrinsic mixed variational approach for a passive structure, the 1D exact beam model deals only with mechanical degrees of freedom. In the present case, an extra 1D electrical degree of freedom has been incorporated. A computational code is developed based on the present theory to solve the two-way coupled electromechanical beam problem. In the present case, we have validated the static results for sensor application. Both linear and nonlinear results have been discussed. Results obtained are very promising and are helpful in building a platform where design, optimization and nonlinear analysis of composite ‘smart’ beams in a multibody framework can be done faster while maintaining acceptable accuracy. more...
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- 2019
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47. Bio-meteorological assessment of outdoor micro-entrepreneurial informal communities in extreme heat- A case of two tropical Indian megacities
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Ariane Middel, Subrata Chattopadhyay, and Shreya Banerjee
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Extreme heat ,Megacity ,business.industry ,Environmental resource management ,Environmental science ,business - Abstract
Extreme heat and associated health risks are increasingly becoming threats to urban populations, especially in developing countries of the tropics. Although human thermal exposure in cities has been studied across the globe, biometeorological conditions in mixed-used spaces, informal economic activity settings, and informal settlements have received little attention. We present a comparative analysis of outdoor thermal comfort for informal micro-entrepreneurial communities in Kolkata and Mumbai. Both cities belong to the Aw Köppen Climate Classification, which signifies tropical hot and dry or Savannah climate. Due to excessive humidity, uncomfortable thermal conditions persist year-round in both cities.An extensive thermal comfort perception survey was conducted between November 2018 and August 2019 in three similar neighborhoods in each city with over 650 valid samples. The microentrepreneurial locations included two pottery markets (Kumbhadwada in Mumbai, Kumartuli in Kolkata); two flower markets that are linear stretches of informal activity areas along very important transportation networks (Dadar in Mumbai, Mallickghat in Kolkata); a book selling and book binding market (Boipara in Kolkata); and an informal commercial area with apparel shops (Fashion Street in Mumbai).Results show that outdoor thermal comfort varied by city, micro-enterprise, and season. Overall, Kolkata respondents reported warmer sensations compared to Mumbai respondents. During the winter, neutral Physiologically Equivalent Temperature (PET) was 27.50oC in Kolkata and 23.75oC in Mumbai. Annual neutral PET was 22.7°C and 26.5°C in Mallickghat and Boipara, respectively. Respondents in Boipara were more sensitive towards warmer sensation than in Mallickghat. Even during the winter, people reported warmer sensation votes. PET was a better predictor of the mean Thermal Sensation Vote (mTSV) compared to air temperature. In Mumbai, we report higher neutral PET for activities at the clothing market compared to other microentrepreneurial activities. Acclimatization significantly improved comfort in the summer, while evaporative cooling was beneficial in the winter. We further employed an ANCOVA to analyze the impact of various non-climatic variables on thermal comfort. Results reveal that behavioral and physiological attributes (presence in the location, expectation, beverage intake) impact the overall sensation in both cities. Availability of shading was a significant parameter in Kolkata, while shading had a negligible effect on outdoor thermal sensation in Mumbai neighborhoods.This is the first study to assess outdoor thermal comfort conditions and perceptions of populations involved in various outdoor informal economic activities in India. Findings of this study help understand the heat health risks of informal communities and inform the design and revitalization of such spaces to improve thermal comfort. more...
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- 2020
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48. Quantum blockchain using weighted hypergraph states
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Shreya Banerjee, Arghya Mukherjee, and Prasanta K. Panigrahi
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Hypergraph ,Blockchain ,Theoretical computer science ,Computer science ,media_common.quotation_subject ,Fidelity ,Distributive property ,Proof of concept ,ComputerSystemsOrganization_MISCELLANEOUS ,Qubit ,Quantum ,Computer Science::Cryptography and Security ,Quantum computer ,media_common - Abstract
This paper proposes a protocol to prepare a blockchain using quantum tools which maintains the distributive nature of the blockchain and provides security against a quantum attacker. The authors provide an example of a two blockchain prepared in IBM 5 qubit quantum computer, as a proof of concept with fidelity close to 0.9548. more...
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- 2020
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49. A Timoshenko like model for piezoelectric energy harvester with shear mode
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Sitikantha Roy and Shreya Banerjee
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Timoshenko beam theory ,Physics ,Rotary inertia ,02 engineering and technology ,Mechanics ,Pure shear ,Degrees of freedom (mechanics) ,021001 nanoscience & nanotechnology ,Piezoelectricity ,020303 mechanical engineering & transports ,0203 mechanical engineering ,Flexural strength ,Ceramics and Composites ,0210 nano-technology ,Beam (structure) ,Civil and Structural Engineering ,Stiffness matrix - Abstract
In the present study a fully coupled electromechanical Timoshenko beam theory is developed for modelling an energy harvester operating in d31 (flexural mode with correction due to shear deformation/rotary inertia) and relatively rare d15 (pure shear) mode. The model is developed based on Variational Asymptotic Method (VAM). VAM is a dimensional reduction methodology, which asymptotically approximates the original 3D electromechanical enthalpy into an equivalent 1D electromechanical enthalpy functional, using small parameters present in the system. Firstly, we develop a fully coupled Timoshenko cross sectional model, which provides us a single common platform to analyze both d15 and d31 mode energy harvester. The developed cross sectional model is represented by a 7 × 7 electromechanical stiffness matrix with an additional 1D electrical variable along with 6 1D mechanical degrees of freedom commonly present in Timoshenko type analysis. The cross-sectional model is general enough to accommodate harvesters made of multilayer, arbitrary shaped cross-section, anisotropic material operating in both pure shear as well as in flexure mode. The coupled cross sectional output is fed subsequently into a 1D beam problem for a complete solution. more...
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- 2018
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50. Formalization of business workflow with typed attributed graph
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Dipty Tripathi, Anirban Sarkar, and Shreya Banerjee
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Correctness ,Computer Networks and Communications ,Computer science ,business.industry ,Business process ,Exception handling ,020207 software engineering ,02 engineering and technology ,Workflow ,Scalability ,0202 electrical engineering, electronic engineering, information engineering ,Graph (abstract data type) ,020201 artificial intelligence & image processing ,Software engineering ,business ,Computer-aided software engineering ,Deadlock prevention algorithms ,Information Systems - Abstract
Purpose Business process workflow is a design conceptualization to automate the sequence of activities to achieve a business goal with involved participants and a predefined set of rules. Regarding this, a formal business workflow model is a prime requisite to implement a consistent and rigorous business process. In this context, majority of the existing research works are formalized structural features and have not focused on functional and behavioral design aspects of business processes. To address this problem, this paper aims to propose a formal model of business process workflow called as business process workflow using typed attributed graph (BPWATG) enriched with structural, functional and behavioral characteristics of business processes. Design/methodology/approach Typed attributed graph (ATG) and first-order logic have been used to formalize proposed BPWATG to provide rigorous syntax and semantics towards business process workflows. This is an effort to execute a business workflow on an automated machine. Further, the proposed BPWATG is illustrated using a case study to show the expressiveness of proposed model. Besides, the proposed graph is initially validated using generic modelling environment (GME) case tool. Moreover, a comparative study is performed with existing formal approaches based on several crucial features to exhibit the effectiveness of proposed BPWATG. Findings The proposed model is capable of facilitating structural, functional and behavioral aspects of business process workflows using several crucial features such as dependency conceptualization, timer concepts, exception handling and deadlock detection. These features are used to handle real-world problems and ensure the consistency and correctness of business workflows. Originality/value BPWATG is proposed to formalize a business workflow that is required to make a model of business process machine-readable. Besides, formalizations of dependency conceptualization, exception handling, deadlock detection and time-out concepts are specified. Moreover, several non-functional properties (reusability, scalability, flexibility, dynamicity, reliability and robustness) are supported by the proposed model. more...
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- 2018
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